Skip to content

@SouthGreenPlatform South Green Bioinformatics platform

Change the repository type filter

All

    Repositories list

    53 repositories

    • PanExplorer

      Public
      Web application to explore bacterial pangenomes
      HTML
      •
      GNU General Public License v3.0
      •1•7•2•0•Updated Feb 21, 2026Feb 21, 2026

    • PanExplorer_workflow

      Public
      Snakemake worklow for bacterial pan-genome analysis. It can be run in the back-end of PanExplorer web application
      Perl
      •
      GNU General Public License v3.0
      •2•6•1•0•Updated Feb 19, 2026Feb 19, 2026

    • SynFlow

      Public
      Synflow a web tool for visualizing structural variations between genomes.
      JavaScript
      •
      GNU General Public License v3.0
      •1•0•0•0•Updated Feb 17, 2026Feb 17, 2026

    • Gigwa2

      Public
      JavaScript
      •
      GNU Affero General Public License v3.0
      •8•9•22•5•Updated Feb 11, 2026Feb 11, 2026

    • rap-green

      Public
      Phylogenetic tree management, exploration and display package
      PHP
      •
      GNU General Public License v3.0
      •4•7•0•0•Updated Jan 21, 2026Jan 21, 2026

    • agrold-new-frontend

      Public
      0•0•0•0•Updated Dec 8, 2025Dec 8, 2025

    • genoring

      Public
      The GenoRing platform is a platform for easily deploying biological data websites.
      Perl
      •
      MIT License
      •1•0•35•0•Updated Nov 19, 2025Nov 19, 2025

    • AgroLD_ETL

      Public
      AgroLD is a RDF knowledge base that consists of data integrated from a variety of plant resources and ontologies. AgroLD ETL is the Python packages developed to…
      etlrdfvcfontologiesrdf-datagffgaf
      Python
      •
      GNU General Public License v3.0
      •1•2•40•0•Updated Sep 15, 2025Sep 15, 2025

    • training_ONT_teaching

      Public
      Jupyter Notebook
      •
      MIT License
      •2•8•0•0•Updated Sep 15, 2025Sep 15, 2025

    • training_bacterial_comparative_genomics

      Public
      Trainings for Bacterial Comparative Genomics (https://southgreenplatform.github.io/training_bacterial_comparative_genomics/)
      Jupyter Notebook
      •
      MIT License
      •1•2•0•0•Updated Jun 23, 2025Jun 23, 2025

    • AgroLD_webapp

      Public
      AgroLD is a RDF knowledge base that consists of data integrated from a variety of plant resources and ontologies. The aim of the Agronomic Linked Data (AgroLD) …
      JavaScript
      •
      GNU General Public License v3.0
      •2•9•17•7•Updated Apr 12, 2025Apr 12, 2025

    • culebrONT

      Public archive
      A snakemake pipeline to assembly, polishing, correction and quality check from Oxford nanopore reads.
      Python
      •
      GNU General Public License v3.0
      •8•36•1•0•Updated Apr 4, 2025Apr 4, 2025

    • GeMo

      Public
      A mosaic genome painting tool for plant genomes
      visualizationbioinformaticswebplantsgenomesbioinformatics-scriptskaryotype
      JavaScript
      •
      GNU General Public License v3.0
      •2•18•7•0•Updated Mar 4, 2025Mar 4, 2025

    • PyRice

      Public
      PyRice is an API to access some Rice public databases at the same time with consistent output. PyRice design is modular and implements a smart query system whic…
      ricebioinformatics-analysis
      Jupyter Notebook
      •
      MIT License
      •1•13•7•3•Updated Dec 12, 2024Dec 12, 2024

    • training_advanced_linux_and_bash_initiation

      Public
      (https://southgreenplatform.github.io/training_advanced_linux_and_bash_initiation)
      Other
      •0•1•0•0•Updated Nov 18, 2024Nov 18, 2024

    • trainings

      Public
      The South Green platform has conducted a series of training courses for several years and this github repository gives access to all trainings (https://southgre…
      linuxclusterngstogglegalaxy
      11•9•0•2•Updated Sep 15, 2024Sep 15, 2024

    • metaXplor

      Public
      Store, share, explore, manipulate metagenomic data
      JavaScript
      •
      GNU Affero General Public License v3.0
      •1•0•0•0•Updated Sep 6, 2024Sep 6, 2024

    • staff-info

      Public
      Interactive SouthGreen Staff Information page
      TeX
      •
      GNU Lesser General Public License v3.0
      •3•1•0•0•Updated Aug 21, 2024Aug 21, 2024

    • training_SV_teaching

      Public
      Training Detection of SNP and Structural Variants using short and long reads
      0•0•0•0•Updated Jun 9, 2024Jun 9, 2024

    • documentation

      Public
      Documentation related to the SouthGreen Platform - https://southgreenplatform.github.io/documentation/
      documentationbioinformatics
      Creative Commons Attribution 4.0 International
      •0•1•0•0•Updated Mar 27, 2024Mar 27, 2024

    • VcfHunter

      Public
      VcfExplorer regroups several programs which principal aims are to map DNA and RNAseq data onto reference genome sequence, perform variant calling, manipulate vc…
      Python
      •
      GNU General Public License v3.0
      •6•15•4•0•Updated Mar 26, 2024Mar 26, 2024

    • Galaxy-docker-rnaseq

      Public
      HTML
      •
      GNU General Public License v3.0
      •0•0•0•0•Updated Feb 20, 2024Feb 20, 2024

    • training_SV_VM

      Public
      App TrainingSV: Biosphere BASE environment for SV analysis using Jupyter
      Dockerfile
      •
      MIT License
      •0•0•0•0•Updated Oct 31, 2023Oct 31, 2023

    • training_ONT_VM

      Public
      Dockerfile
      •
      MIT License
      •1•0•0•0•Updated Oct 31, 2023Oct 31, 2023

    • training_reproducible_research

      Public
      Training on Tools for Reproducible Research given by SouthGreen
      gitsnakemakenotebookcontainercondarmarkdownquarto
      Python
      •
      Creative Commons Attribution 4.0 International
      •3•3•6•0•Updated Jun 15, 2023Jun 15, 2023

    • panache

      Public
      Panache is a web-based interface designed for the visualization of linearized pangenomes. It can be used to show presence/absence information of pangenomic bloc…
      javascriptpangenomevizualisation
      Vue
      •
      MIT License
      •5•47•10•0•Updated Jun 7, 2023Jun 7, 2023

    • genomehubs

      Public
      0•0•0•0•Updated Jun 7, 2023Jun 7, 2023

    • training_python

      Public
      Python training given by SouthGreen (https://southgreenplatform.github.io/training_python)
      pythontraining
      Creative Commons Attribution 4.0 International
      •0•2•0•0•Updated Apr 21, 2023Apr 21, 2023

    • GeLoc

      Public
      Geloc provides convenient tools to visualised and download LRR genes family annotation data.
      dataviz
      JavaScript
      •0•1•0•0•Updated Apr 11, 2023Apr 11, 2023

    • beegmac

      Public
      HTML
      •0•0•0•0•Updated Feb 24, 2023Feb 24, 2023